miRNA display CGI


Results 1 - 20 of 77 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
11942 5' -49.9 NC_003278.1 + 20536 0.69 0.730386
Target:  5'- gGGCGGCcAGUUCcAGAccauGCGCGaaaGCCUg -3'
miRNA:   3'- -CCGCCGuUCGAGaUUUu---CGUGU---UGGG- -5'
11942 5' -49.9 NC_003278.1 + 30366 0.72 0.531441
Target:  5'- aGGUGGcCGAGUUCUGGGAGgucUACGACUa -3'
miRNA:   3'- -CCGCC-GUUCGAGAUUUUC---GUGUUGGg -5'
11942 5' -49.9 NC_003278.1 + 23363 0.71 0.58252
Target:  5'- cGGCGGUuacaucaccagccugGAGCUg-GAAAGCAagcuGCCCg -3'
miRNA:   3'- -CCGCCG---------------UUCGAgaUUUUCGUgu--UGGG- -5'
11942 5' -49.9 NC_003278.1 + 32149 0.71 0.612006
Target:  5'- uGCGGCGAGCugggcggUCUGgcccagucgcgGAAGCGCuuCCUg -3'
miRNA:   3'- cCGCCGUUCG-------AGAU-----------UUUCGUGuuGGG- -5'
11942 5' -49.9 NC_003278.1 + 27861 0.7 0.658186
Target:  5'- cGCGGCAAGCgcauccucGAGgACcGCCCa -3'
miRNA:   3'- cCGCCGUUCGagauu---UUCgUGuUGGG- -5'
11942 5' -49.9 NC_003278.1 + 2734 0.7 0.660549
Target:  5'- --gGGCGAGUagCUGAAGGUGCGcACCCc -3'
miRNA:   3'- ccgCCGUUCGa-GAUUUUCGUGU-UGGG- -5'
11942 5' -49.9 NC_003278.1 + 31579 0.7 0.660549
Target:  5'- cGGCGGCAuGCUU---AAGCgu-ACCCu -3'
miRNA:   3'- -CCGCCGUuCGAGauuUUCGuguUGGG- -5'
11942 5' -49.9 NC_003278.1 + 28120 0.69 0.684096
Target:  5'- cGCGGCAAGUgcggCgacaccuGGCACAucaaggaaaucuACCCg -3'
miRNA:   3'- cCGCCGUUCGa---Gauuu---UCGUGU------------UGGG- -5'
11942 5' -49.9 NC_003278.1 + 12067 0.69 0.707412
Target:  5'- cGCGGUgauuGAGUaCgac-AGCGCAGCCCa -3'
miRNA:   3'- cCGCCG----UUCGaGauuuUCGUGUUGGG- -5'
11942 5' -49.9 NC_003278.1 + 23330 0.73 0.486473
Target:  5'- cGGCGGCAAuGUgc----AGCACAGCCUc -3'
miRNA:   3'- -CCGCCGUU-CGagauuuUCGUGUUGGG- -5'
11942 5' -49.9 NC_003278.1 + 3308 0.73 0.486473
Target:  5'- cGGCGGCcGGCUUgcccuuguuGAAGCGCucGCCa -3'
miRNA:   3'- -CCGCCGuUCGAGau-------UUUCGUGu-UGGg -5'
11942 5' -49.9 NC_003278.1 + 4982 0.73 0.475511
Target:  5'- aGGuCGGCGGGCcgucgaagcgaUCgccGAGCACAGCCg -3'
miRNA:   3'- -CC-GCCGUUCG-----------AGauuUUCGUGUUGGg -5'
11942 5' -49.9 NC_003278.1 + 20742 0.81 0.17285
Target:  5'- -uCGGCGAGUUcCUGAAGGC-CAACCCg -3'
miRNA:   3'- ccGCCGUUCGA-GAUUUUCGuGUUGGG- -5'
11942 5' -49.9 NC_003278.1 + 28608 0.79 0.229751
Target:  5'- uGGCGGCAAGCUgccgaaaCUGAucuGGGCGCuggacaacgAACCCg -3'
miRNA:   3'- -CCGCCGUUCGA-------GAUU---UUCGUG---------UUGGG- -5'
11942 5' -49.9 NC_003278.1 + 14172 0.75 0.354966
Target:  5'- cGCGGCGAGCgaggCcgGGAAGaagugGCAGCCCa -3'
miRNA:   3'- cCGCCGUUCGa---Ga-UUUUCg----UGUUGGG- -5'
11942 5' -49.9 NC_003278.1 + 29215 0.75 0.364157
Target:  5'- cGGCGGCcagcGAGUUCaAGAAGCGCcuGCUCg -3'
miRNA:   3'- -CCGCCG----UUCGAGaUUUUCGUGu-UGGG- -5'
11942 5' -49.9 NC_003278.1 + 31365 0.75 0.392705
Target:  5'- cGGCGGCGccaaGGCU-----AGCACAACCa -3'
miRNA:   3'- -CCGCCGU----UCGAgauuuUCGUGUUGGg -5'
11942 5' -49.9 NC_003278.1 + 28672 0.74 0.402539
Target:  5'- cGGCGGUggGUgaccGAGGCGCGcGCCCu -3'
miRNA:   3'- -CCGCCGuuCGagauUUUCGUGU-UGGG- -5'
11942 5' -49.9 NC_003278.1 + 26770 0.74 0.416566
Target:  5'- cGGCGGCAuGUUCgugcagaugcccGAGC-CAACCCa -3'
miRNA:   3'- -CCGCCGUuCGAGauu---------UUCGuGUUGGG- -5'
11942 5' -49.9 NC_003278.1 + 28063 0.73 0.464672
Target:  5'- uGCGGCAaaaaggAGCUCUAcacccuGGUcgACAGCCCc -3'
miRNA:   3'- cCGCCGU------UCGAGAUuu----UCG--UGUUGGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.